scholarly journals Ancylomarina longa sp. nov., isolated from southern Okinawa Trough sediment and emended description of the family Marinifilaceae

2020 ◽  
Vol 70 (4) ◽  
pp. 2531-2536 ◽  
Author(s):  
Tianyu Fu ◽  
Hongchang Cui ◽  
Chao Jia ◽  
Wen Sun ◽  
Shun Zhou ◽  
...  
Keyword(s):  
Okinawa Trough ◽  
Phylogenetic Analyses ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Okinawa Trough ◽  
The Family ◽  
Long Rod ◽  
Type Strains

A Gram-stain-negative, obligately anaerobic, non-motile, non-spore-forming, long-rod-shaped and non-flagellated bacterial strain, designated T3-2 S1-CT, was isolated from a sediment sample collected at the Okinawa Trough. Phylogenetic analyses of 16S rRNA gene sequences and the whole genome revealed that strain T3-2 S1-CT was a member of the family Marinifilaceae and exhibited less than 95.1 % sequence similarities to the closely related type strains of the family Marinifilaceae . Optimal growth occurred at pH 7.0, 28 °C and in the presence of 3 % (w/v) NaCl. The isoprenoid quinone of strain T3-2 S1-CT was identified as menaquinone-7 (MK-7) and the predominant fatty acids (>10 %) were iso-C15 : 0 (38.9 %) and anteiso-C15 : 0 (11.6 %). The major polar lipids were one phosphatidylethanolamine, one phosphatidylmonomethylethanolamine, one aminolipids, two unidentified lipids and two unidentified phospholipids. The DNA G+C content of strain T3-2 S1-CT was 35.7 mol%. On the basis of the results of polyphasic analyses, strain T3-2 S1-CT is considered to represent a novel species of the genus Ancylomarina , for which the name Ancylomarina longa sp. nov. is proposed. The type strain is T3-2 S1-CT (=KCTC 15505T=MCCC 1K01617T).

Namhaeicola litoreus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from seawater

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2163-2168 ◽  
Author(s):  
Yong-Taek Jung ◽  
Ji-Hoon Kim ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A Gram-staining-negative, non-flagellated, non-gliding and pleomorphic bacterial strain, designated DPG-25T, was isolated from seawater in a seaweed farm in the South Sea in Korea and its taxonomic position was investigated by using a polyphasic approach. Strain DPG-25T grew optimally at 25 °C, at pH 7.0–7.5 and in the presence of 2 % (w/v) NaCl. Flexirubin-type pigments were not produced. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DPG-25T formed a cluster with the type strains of Actibacter sediminis , Aestuariicola saemankumensis and Lutimonas vermicola . Strain DPG-25T exhibited 16S rRNA gene sequence similarity values of 95.3, 93.1 and 93.6 % to the type strains of Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola , respectively. Strain DPG-25T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids detected in strain DPG-25T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content was 39.9 mol%. Differential phenotypic properties and the phylogenetic distinctiveness of strain DPG-25T demonstrated that this strain is distinguishable from Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola . On the basis of the data presented here, strain DPG-25T represents a novel species in a novel genus of the family Flavobacteriaceae , for which the name Namhaeicola litoreus gen. nov., sp. nov. is proposed. The type strain of Namhaeicola litoreus is DPG-25T ( = KCTC 23702T  = CCUG 61485T).

scholarly journals Flavicella marina gen. nov., sp. nov., a carotenoid-producing bacterium from surface seawater

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 799-804 ◽  
Author(s):  
Maki Teramoto ◽  
Miyuki Nishijima
Keyword(s):  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Surface Seawater ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Novel Genus And Species ◽  
Bacterium Strain ◽  
Kochi Prefecture ◽  
Type Strains

A Gram-stain-negative, non-motile, mesophilic, aerobic, rod-shaped or spherical bacterium, strain 2A-7T, was isolated from surface seawater at Muroto city, Kochi prefecture, Japan. The strain produced a pigment(s), the absorption spectrum of which closely resembled that of β-carotene. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain fell within the family Flavobacteriaceae and clustered distantly with the type strains of species of the genus Lutibacter (up to 93.9 % similarity). The DNA G+C content was 34.1 mol%. The major fatty acids were summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c), iso-C17 : 0 3-OH and iso-C15 : 0 3-OH. The major polar lipids were phosphatidylethanolamine and three unidentified lipids. Menaquinone 6 was detected as the sole isoprenoid quinone. On the basis of phenotypic, genotypic and chemotaxonomic data, strain 2A-7T represents a novel genus and species, for which the name Flavicella marina gen. nov., sp. nov. is proposed. The type strain of Flavicella marina is 2A-7T ( = NBRC 110145T = KCTC 42197T).

scholarly journals Leekyejoonella antrihumi gen. nov., sp. nov., a new member of the family Dermacoccaceae isolated from a cave soil

2020 ◽  
Vol 70 (5) ◽  
pp. 3340-3347 ◽  
Author(s):  
Soon Dong Lee ◽  
In Seop Kim ◽  
Peter Schumann ◽  
Gwanpil Song
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Draft Genome ◽  
Rrna Gene ◽  
The Novel ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A novel Gram-stain-positive, actinobacterial strain, designated C5-26T, was isolated from soil from a natural cave in Jeju, Republic of Korea, and its taxonomic position was investigated using a polyphasic approach. The organism was aerobic, and cells were non-spore-forming, non-motile cocci that occurred singly, in pairs, in triplets, in tetrads, in short chains or in irregular clusters. Colonies of the cells were circular, convex, entire and white. The peptidoglycan type was A4α with an l-Ser–d-Asp interpeptide bridge. The whole-cell sugars comprised glucose, rhamnose, mannose, arabinose, galactose and ribose. The major menaquinone was MK-8(H4). The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and an unidentified phospholipid. The major fatty acids were iso-C16 : 0 and iso-C16 : 1 h. The size of the draft genome was 5.32 Mbp with depth of coverage of 161×. The G+C content of the genomic DNA was 67.1 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that the novel isolate belonged to the family Dermacoccaceae and formed a distinct subcluster at the base of the radiation of the genus Luteipulveratus . Highest sequence similarities of the novel isolate were found to the type strains of Luteipulveratus halotolerans (96.2 %), Branchiibius hedensis (95.4 %), Luteipulveratus mongoliensis (95.4 %) and Branchiibius cervicis (95.3 %). The whole genome-based phylogeny supported the novelty of the isolate at the genus level in the family Dermacoccaceae . On the basis of data from this polyphasic study, strain C5-26T (=KCTC 39632T=DSM 108676T) represents a novel species of a new genus in the family Dermacoccaceae , for which the name Leekyejoonella antrihumi gen. nov., sp. nov. is proposed.

scholarly journals Sandaracinomonas limnophila gen. nov., sp. nov., a new member of the family Cytophagaceae isolated from a freshwater mesocosm

2020 ◽  
Vol 70 (4) ◽  
pp. 2178-2185 ◽  
Author(s):  
Wen-Ming Chen ◽  
Cheng-Ye Cai ◽  
Shih-Yi Sheu
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Taxonomic Approach ◽  
Type Strains

A bacterial strain designated FSY-15T was isolated from a freshwater mesocosm in Taiwan and characterised using a polyphasic taxonomic approach. Cells of strain FSY-15T were Gram-negative, aerobic, non-spore forming, non-motile rods and formed orange coloured colonies. Growth occurred at 20–30 °C (optimum, 25 °C), at pH 6–7.5 (optimum, pH 7) and with 0–0.5 % NaCl (optimum, 0 %). Phylogenetic analyses based on 16S rRNA gene sequences and coding sequences of 92 protein clusters indicated that strain FSY-15T formed a phylogenetic lineage in the the family Cytophagaceae . Strain FSY-15T was most closely related to the genera Pseudarcicella and Arcicella, and the levels of 16S rRNA gene sequence identity with respect to members of related genera are less than 94.1 %. Strain FSY-15T showed less than 68.8 % average nucleotide identity and less than 24.7 % digital DNA–DNA hybridisation identity compared to the type strains of related genera within the family Cytophagaceae . The predominant fatty acids were iso-C15 : 0, C16 : 1ω5c and the major hydroxyl fatty acid was iso-C15 : 0 3-OH. The major isoprenoid quinone was MK-7 and the DNA G+C content was 35.8 mol%. The major polar lipids were phosphatidylethanolamine and several uncharacterised aminophospholipid, aminolipid, phospholipid and lipid. The major polyamine was spermidine. On the basis of the genotypic and phenotypic data, strain FSY-15T represents a novel species of a new genus in the family Cytophagaceae , for which the name Sandaracinomonas limnophila gen. nov., sp. nov. is proposed. The type strain is FSY-15T (=BCRC 81011T =LMG 29732T =KCTC 52445T).

Tamlicoccus marinus gen. nov., sp. nov., isolated from seawater

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 1951-1954 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Unknown Phospholipid ◽  
Type Strains ◽  
Cellular Fatty Acid Profile

A novel actinobacterial strain was isolated from a seawater sample collected on Mara Island, Jeju, Republic of Korea. Cells of this organism were aerobic, Gram-positive, non-spore-forming, non-motile cocci that occurred singly or in pairs. Colonies were circular, smooth, convex and white–cream in colour. Phylogenetic analyses based on 16S rRNA gene sequences showed that the organism belonged to the family Dermacoccaceae and formed a monophyletic clade between the type strains of Demetria terragena (96.8 % similarity) and Branchiibius hedensis (95.2 % similarity). The cell-wall peptidoglycan contained l-lysine, alanine, aspartic acid, glutamic acid, glycine and serine, indicating that the isolate possessed peptidoglycan type A4α. The whole-cell sugars were galactose, glucose, mannose, xylose, arabinose, ribose and rhamnose. The major menaquinone was MK-8(H4). The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, an unknown phospholipid and five unknown lipids. The cellular fatty acid profile was represented by large amounts of iso-methyl branched and monounsaturated iso- and anteiso-methyl branched acids, along with the presence of a diagnostic 10-methyl acid. The G+C content of the DNA was 71 mol%. On the basis of data from polyphasic analyses presented here, strain MSW-24T is considered to represent a novel species of a new genus in the family Dermacoccaceae , for which the name Tamlicoccus marinus gen. nov., sp. nov. is proposed. The type strain of Tamlicoccus marinus is MSW-24T ( = KCTC 19485T = DSM 21415T).

Thiogranum longum gen. nov., sp. nov., an obligately chemolithoautotrophic, sulfur-oxidizing bacterium of the family Ectothiorhodospiraceae isolated from a deep-sea hydrothermal field, and an emended description of the genus Thiohalomonas

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 235-241 ◽  
Author(s):  
Koji Mori ◽  
Ken-ichiro Suzuki ◽  
Kaoru Yamaguchi ◽  
Tetsuro Urabe ◽  
Satoshi Hanada
Keyword(s):  
Hydrothermal Vents ◽  
Phylogenetic Analyses ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Emended Description ◽  
Novel Genus And Species ◽  
Sulfur Oxidizing

A novel, obligately chemolithoautotrophic, sulfur-oxidizing bacterial strain, designated strain gps52T, was isolated from a rock sample collected near the hydrothermal vents of the Suiyo Seamount in the Pacific Ocean. The cells possessed a Gram-stain-negative-type cell wall and contained menaquinone-8(H4) and menaquinone-9(H4) as respiratory quinones, and C16 : 1ω7c, C16 : 0 and C18 : 1ω7c as major cellular fatty acids. Neither storage compounds nor extensive internal membranes were observed in the cells. Strain gps52T grew using carbon dioxide fixation and oxidation of inorganic sulfur compounds with oxygen as electron acceptor. Optimal growth was observed at 32 °C, pH 6.5 and with 3 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain gps52T belongs to the family Ectothiorhodospiraceae and is different from any other known bacteria, with sequence similarities of less than 93 %. Based on phenotypic and phylogenetic findings, the isolate is considered to represent a novel genus and species in the family Ectothiorhodospiraceae , and the name Thiogranum longum gen. nov., sp. nov. is proposed. The type strain is gps52T ( = NBRC 101260T = DSM 19610T). An emended description of the genus Thiohalomonas is also proposed.

scholarly journals Muricauda alvinocaridis sp. nov., isolated from shrimp gill from the Okinawa Trough

2020 ◽  
Vol 70 (3) ◽  
pp. 1666-1671 ◽  
Author(s):  
Lijun Liu ◽  
Min Yu ◽  
Shun Zhou ◽  
Tianyu Fu ◽  
Wen Sun ◽  
...  
Keyword(s):  
Type Species ◽  
Okinawa Trough ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
The Okinawa Trough ◽  
Gene Sequence Analysis ◽  
Bacterium Strain

A Gram-stain-negative, strictly aerobic, non-motile, long, straight-rod and non-flagellated marine bacterium strain, designated SCR12T, was isolated from the gill of a shrimp collected in the Tangyin hydrothermal field of the Okinawa Trough. The growth temperature was in the range of 16–40 °C and the optimum temperature was 37 °C. Optimal growth occurred at pH 6.5 and in the presence of 3 % (w/v) NaCl. The predominant isoprenoid quinone of strain SCR12T was menaquinone-6 (MK-6). The predominant fatty acids (>10 %) were iso-C15 : 0 (44.2 %), iso-C15 : 1 G (19.0 %) and iso-C17 : 0 3-OH (12.1 %). The major polar lipids comprised one phosphatidylethanolamine, three unidentified phospholipids, two unidentified aminolipids and three unidentified lipids. Based on the results of 16S rRNA gene sequence analysis, strain SCR12T was found to be most closely related to Muricauda olearia CL-SS4T (98.09 %), followed by Muricauda beolgyonensis BB-My12T (97.65 %), Muricauda aquimarina SW-63T (97.58 %) and Muricauda ruestringensis DSM 13258T (97.31 %) and with lower sequence similarities (95.74–97.10 %) to other species of the genus Muricauda . Genome relatedness between strain SCR12T and M. olearia CL-SS4T was computed using both average nucleotide identity (ANI) and DNA–DNA hybridization (DDH) and resulted in values of 85.6 % and 29.3±2.3 %, respectively. The genomic DNA G+C content of strain SCR12T was 42.3 mol%. On the basis of polyphasic analysis, the strain SCR12T was considered to represent a novel species of the genus Muricauda, for which the name Muricauda alvinocaridis sp. nov. is proposed. The type strain is SCR12T (=MCCC 1K03731T=JCM 33425T).

Zophobihabitans entericus gen. nov., sp. nov., a new member of the family Orbaceae isolated from the gut of a superworm Zophobas morio

2021 ◽  
Vol 71 (11) ◽  
Author(s):  
Chih-Horng Kuo ◽  
Pin-Yun Huang ◽  
Shih-Yi Sheu ◽  
Der-Shyan Sheu ◽  
Li-Cheng Jheng ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel bacterial strain, designated IPMB12T, isolated from the gut of the superworm Zophobas morio in Taiwan, was characterized using a polyphasic taxonomic approach. Cells were Gram-stain-negative, facultatively anaerobic, non-motile, coccoid or rod-shaped and formed translucent colonies. Optimal growth occurred at 25–37 °C, pH 9–10, and with 0–2 % NaCl. Phylogenetic analyses based on 16S rRNA gene sequences and coding sequences of 92 protein clusters indicated that strain IPMB12T is affiliated with genus in the the family Orbaceae in the class Gammaproteobacteria . Strain IPMB12T was most closely related to Gilliamella mensalis LMG 29880T with a 94.6 % 16S rRNA gene sequence similarity. Strain IPMB12T showed less than 71.6 % average nucleotide identity, less than 71.5 % average amino acid identity and less than 21.2 % digital DNA–DNA hybridization identity compared to the strains of related genera within the family Orbaceae . The major fatty acids of strain IPMB12T were summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c), C16 : 0 and C14 : 0. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, one uncharacterized phosphoaminoglycolipid and one uncharacterized aminophospholipid. The major isoprenoid quinone was Q-8. Genomic DNA G+C content of strain IPMB12T was 39.3 mol%. On the basis of phenotypic and genotypic properties and phylogenetic inference, strain IPMB12T represents a novel species of a new genus in the family Orbaceae , for which the name Zophobihabitans entericus gen. nov., sp. nov. is proposed. The type strain is IPMB12T (=BCRC 80908T =LMG 32079T=KCTC 82347T=KACC 22323T).

Planifilum composti sp. nov., a thermophile isolated from compost

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4557-4561 ◽  
Author(s):  
Song-Ih Han ◽  
Jae-Chan Lee ◽  
Hyo-Jin Lee ◽  
Kyung-Sook Whang
Keyword(s):  
Thermophilic Bacteria ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Optimum Ph ◽  
Type Strains ◽  
Sequence Similarities

Two thermophilic bacteria, designated strains P8T and P12, were isolated from compost in Korea. The isolates grew aerobically from 50 to 75 °C (optimum at 55 °C) and at pH 4.0–9.0 (optimum pH 6.5). Aerial mycelia were not observed. Single spores were produced along the substrate hypha. The predominant menaquinone was MK-7. Major fatty acids were iso-C17 : 0, iso-C15 : 0 and iso-C16 : 0. The cell wall contained meso-diaminopimelic acid and the polar lipids were phosphatidylethanolamine, an aminophospholipid and sphingoglycolipid. The DNA G+C contents were 55.9–56.5 mol%. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strains P8T and P12 belonged to the genus Planifilum in the family Thermoactinomycetaceae with sequence similarities of 96.1–97.2 %. Levels of DNA–DNA relatedness between strain P8T and the type strains of recognized species of the genus Planifilum ranged from 28.9 to 38.2 %. On the basis of data from the present polyphasic study, strains P8T and P12 are considered to represent a novel species of the genus Planifilum , for which the name Planifilum composti sp. nov. is proposed. The type strain is P8T ( = KACC 16581T = NBRC 108858T).

Pustulibacterium marinum gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from the Bashi Channel

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 3056-3061 ◽  
Author(s):  
Guanghua Wang ◽  
Danyan Zhou ◽  
Shikun Dai ◽  
Xinpeng Tian ◽  
Jie Li ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Natural Seawater ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A Gram-reaction-negative, non-spore-forming, gliding, non-translucent, colourless or yellow, aerobic and elevated-colony-forming strain, designated E403T, was isolated from the Bashi Channel and subjected to a polyphasic taxonomic study. Strain E403T could grow in the presence of 0.3–8 % (w/v) NaCl, at 16–43 °C and at pH 6–9, and grew optimally at 28 °C, pH 8, in natural seawater medium. The respiratory quinones were MK-6 and MK-7. The major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G, summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), iso-C15 : 0 3-OH and C16 : 0. The DNA G+C content of strain E403T was 37.9 mol%. Phylogenetic analyses based on 16S rRNA gene sequences of members of the family Flavobacteriaceae showed that strain E403T formed a distinct evolutionary lineage within the stable cluster containing type strains Zhouia amylolytica HN-171T (92.2 % similarity) and Joostella marina En5T (92.4 % similarity). In addition to the large 16S rRNA gene sequence differences, E403T can also be distinguished from the reference type strains J. marina En5T and Sinomicrobium oceani SCSIO 03483T by several phenotypic characteristics and chemotaxonomic properties. On the basis of phenotypic, chemotaxonomic and phylogenetic properties, strain E403T is suggested to represent a novel species of a new genus in the family Flavobacteriaceae , for which the name Pustulibacterium marinum gen. nov., sp. nov. is proposed. The type strain is E403T ( = CCTCC AB2012862T = CGMCC 1.12333T = KCTC 32192T).

Sign in / Sign up

Export Citation Format

Share Document